A sub-selection of 85 relevant gray matter regions over the labels provided by the selected atlas is used for the final volumetry and cortical thickness table provided, in order to assure sensible outputs and comparability of analysis.

Volumetry (for each tissue type and parcellated regions).

Cortical thickness computation for cortical regions.

An additional step is taken after the script finishes and relevant outputs are acpc-aligned.

Users of this tool should be in possession of a FreeSurfer license. Obtaining a license is free and comes in the form of a license.txt file.More information on the FreeSurfer license can be found here.Follow this link to obtain a license key.